vector<string> setParameters();
string getCommandName() { return "make.fastq"; }
string getCommandCategory() { return "Sequence Processing"; }
+
string getHelpString();
+ string getOutputPattern(string);
+ string getCitation() { return "http://www.mothur.org/wiki/Make.fastq"; }
+ string getDescription() { return "creates a fastq file from a fasta and quality file"; }
+
int execute();
void help() { m->mothurOut(getHelpString()); }
private:
- string fastafile, qualfile, outputDir;
+ string fastafile, qualfile, outputDir, format;
bool abort;
vector<string> outputNames;